とりあえず使用したい試薬の説明書でも読んでみたらどうでしょう?
Thermo Fisher ScientificのMitoTracker Red CMXRosを読んでみたら下の様に記述されています。
To label mitochondria, cells are simply incubated with MitoTracker® probes, which passively diffuse across the plasma membrane and accumulate in active mitochondria. Once their mitochondria are labeled, the cells can be treated with an aldehyde-based fixative for samples that need fixation to allow further processing of the sample. Some of the MitoTracker probes are also retained after permeabilization with some detergents during subsequsubsequent processing steps |
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